Modular routines

One task per routine and well-defined interfaces

A system for scientific data analysis needs to be easy-to-use
and to provide clear advantages to be employed.
A system for scientific data analysis is much more complex
as single programs for data analysis.

Modularisation is one of the key concepts not only of (software for) reproducible research, but of software development as a whole. Without modularisation no reuse, and without reuse no chance to tackle complex tasks.

Which tool to use

Note: This section is clearly opinionated. There are definitely other tools available. However, this is the tool the author recommends from own experience.

Python
Probably currently the best available open-source high-level language for scientific programming

SciPy
Python-based ecosystem of open-source software for mathematics, science, and engineering
NumPy, SciPy, Matplotlib, iPython, Sympy, pandas

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